AIMC Topic: Computational Biology
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The effect of taxonomic, host-dependent features and sample bias on virus host prediction using machine learning and short sequence k-mers.
Scientific reports
Aug 27, 2025
Metaviromic studies of potential emerging infection reservoirs led to discovery of many novel viruses. Since metaviromes contain viruses from target host, its food or other sources, fast and robust approaches are needed to predict hosts of unknown vi...
ADAMTS2 mediates epithelial‒mesenchymal transition and inflammation in high-grade serous ovarian cancer: a study based on bioinformatic analyses and experiments.
BMC cancer
Aug 26, 2025
BACKGROUND: The importance of epithelial‒mesenchymal transition (EMT) in tumour invasion and metastasis in high-grade serous ovarian cancer (HGSOC) has been highlighted in numerous studies, but genetic biomarkers for predicting EMT in HGSOC are still...
Screening of hub genes and immunocytes related to tendon injury based on bioinformatics and machine learning models.
Scientific reports
Aug 26, 2025
Tendon injury is a common and challenging clinical problem, and its healing process involves complex cellular and biological factors. Therefore, this study aims to reveal the mechanism of tendon healing and provide theoretical basis for clinical trea...
Environmental exposure to perfluorooctane sulfonate and its role in esophageal cancer progression: a comprehensive bioinformatics and experimental study.
Scientific reports
Aug 26, 2025
Esophageal cancer (ESCA) is a significant malignancy with rising global incidence rates and considerable impacts on patient survival and quality of life. Current diagnostic and therapeutic strategies face limitations, necessitating research into its ...
Leveraging agent-based models and deep reinforcement learning to predict taxis in cell migration.
NPJ systems biology and applications
Aug 26, 2025
We present a novel computational framework that combines Agent-Based Modeling (ABM) with Reinforcement Learning (RL) using the Double Deep Q-Network (DDQN) algorithm to determine cellular behavior in response to environmental signals. With this appro...
Identification of core genes in the extracellular matrix and the regulatory mechanisms of the immune microenvironment in idiopathic pulmonary fibrosis using WGCNA and machine learning methods.
PloS one
Aug 26, 2025
OBJECTIVE: This research aims to detect genes associated with the extracellular matrix (ECM) in idiopathic pulmonary fibrosis (IPF) using bioinformatics techniques and investigate their relationships with immune infiltration, with the goal of identif...
Revealing potential interfering genes between abdominal aortic aneurysm and periodontitis through machine learning and bioinformatics analysis.
PloS one
Aug 26, 2025
This study aimed to identify potential interacting genes between abdominal aortic aneurysm (AAA) and periodontitis. To achieve this, we obtained datasets of AAA and periodontitis from the GEO database, conducted differential analysis on the AAA datas...
Identification and analysis of the endoplasmic reticulum stress hub genes in sepsis-associated ARDS.
Scientific reports
Aug 23, 2025
Acute respiratory distress syndrome (ARDS) is one of the most common and serious complications in the development of sepsis. Endoplasmic reticulum stress (ERS) plays an important role in the pathophysiologic process of sepsis-associated ARDS. The aim...
A review on multi-omics integration for aiding study design of large scale TCGA cancer datasets.
BMC genomics
Aug 22, 2025
BACKGROUND: Rapid advancements in high-throughput sequencing technologies allow for detailed and accurate measurement of omics features within their biological context. The integration of different omics types creates heterogeneous datasets, presenti...
GraphVelo allows for accurate inference of multimodal velocities and molecular mechanisms for single cells.
Nature communications
Aug 22, 2025
RNA velocities and generalizations emerge as powerful approaches for extracting time-resolved information from high-throughput snapshot single-cell data. Yet, several inherent limitations restrict applying the approaches to genes not suitable for RNA...
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